Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1092346 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR28497300_1.fastq.gz | Fastqsanger.gz | |||
| SRR28497300_2.fastq.gz | Fastqsanger.gz | |||
| SRR28497301_1.fastq.gz | Fastqsanger.gz | |||
| SRR28497301_2.fastq.gz | Fastqsanger.gz | |||
| SRR28497302_1.fastq.gz | Fastqsanger.gz |
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Project description:Peanut (Arachis hypogaea L.) is considered as a moderately salt-sensitive species and thus soil salinity can be a limiting factor for peanut cultivation. To gain insights into peanut plant physiology in response to salt stress and alleviation, we comprehensively characterized leaf relative electrolyte leakage (REC), photosynthesis, leaf transpiration, and metabolism of plants under salt stress and plants that were subjected to salt stress followed by salt alleviation period. As expected, we found that REC levels were higher when plants were subjected to salt stress compared with the untreated plants. However, in contrast to expectations, REC was even higher compared with salt treated plants when plants were transferred from salt stress to standard conditions. To decipher REC variation in response to salt stress, especial during the recovery, metabolite, and transcript variations were analyzed by GC/MS and RNA-seq method, respectively. Ninety two metabolites, among total 391 metabolites identified, varied in response to salt and 42 metabolites responded to recovery specially. Transcriptomics data showed 1,742 in shoots and 3,281 in roots transcript varied in response to salt stress and 372 in shoots and 1,386 transcripts in roots responded specifically to recovery, but not salt stress. Finally, 95 transcripts and 1 metabolite are indicated as candidates involved in REC, photosynthesis, transpiration, and Na+ accumulation variation were revealed by using the principal component analysis (PCA) and correlation analysis. This study provides valuable information on peanut response to salt stress and recovery and may inspire further study to improve salt tolerance in peanut germplasm innovation.
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Project description:Investigation of resistance genes from 36,158 peanut ESTs after salt stress treatment, compared with untreated peanut. Yield some useful insights into salt-mediated signal transduction pathways in peanut.
2018-11-30 | GSE75625 | GEO
Project description:To investigate the salt and waterlogging mechanism of barley, we chose salt and waterlogging sensitive and tolerant varieties as subjects. We then performed gene expression profiling analysis using data obtained from RNA-seq of two varieties at two three points.
2023-05-31 | GSE230751 | GEO
Project description:The aim of this study was to minimize the number of candidate genes responsible for salt tolerance between a pair of rice varieties (CSR27 and MI48) with contrasting level of salt tolerance by bulked segregant analysis of their recombinant inbred lines. Microarray analysis of RNA extracted from the tolerant and susceptible parents without and with stress showed 798 and 2407 differentially expressed genes, respectively. The number of differentially expressed genes was drastically reduced to 70 and 30, by pooling the RNAs from ten extreme tolerant and ten extreme susceptible RILs due to normalization of irrelevant differentially expressed genes between the parents. RNA from CSR27, MI48, tolerant bulk and susceptible bulk grown under control and salt stress conditions were analysed in two different biological replications (A and B) making total sixteen samples
2010-04-28 | E-GEOD-16108 | biostudies-arrayexpress
Project description:Soil salinity is one of the major factors that limits area of cultivable land and yield potential of crops. Considered as a moderately salt sensitive economically-important crop, biological processes involved in salt stress response in peanut remain elusive. Publishing of the genomic sequence of cultivar peanut represent a new opportunity for further research. ABA INSENSITIVE 4 (ABI4) is an evolutionary conserved transcription factor. Mutation of ABI4 in Arabidopsis enhanced salt tolerance of seedlings significantly by targeting and down-regulating of HKT1;1. However, few achievements were reported in other aspects. In this study, AhABI4s in peanut were first cloned and silenced via virus-induced gene silencing method. Phenotype analysis showed that down-regulation of AhABI4s enhanced salt tolerance of peanut significantly. According to proteome and phosphoproteome analysis, expression of 1,900 proteins and 2,620 phosphorylation sites were predicted to be affected by silencing of AhABI4s under salt stress. Proteins with ion transporting activity were enriched by GO analysis. Further analysis showed that, 31 proteins may participate in homeostasis maintain of Na+, K+, Ca2+, H+ and Cl- in plant cells. Combined transcriptome and proteome analysis indicated that 63 genes may regulated by AhABI4s directly and 7 of them, ABI5-like5, RABA1f, SCAMP3, PK, RP-S26e, HSP70, cysteine proteinase inhibitor, were able to interact with the predicted ion transporters. Silencing of AhABI4s altered down-stream protein-protein interaction network to regulate expression/phosphorylation level of ion transporters, and finally influence homeostasis under salt stress. This work provides novel insights for salt response mechanism research and offer important evidence for protein function study.
2021-07-18 | PXD015090 | Pride
Project description:The aim of this study was to minimize the number of candidate genes responsible for salt tolerance between a pair of rice varieties (CSR27 and MI48) with contrasting level of salt tolerance by bulked segregant analysis of their recombinant inbred lines. Microarray analysis of RNA extracted from the tolerant and susceptible parents without and with stress showed 798 and 2407 differentially expressed genes, respectively. The number of differentially expressed genes was drastically reduced to 70 and 30, by pooling the RNAs from ten extreme tolerant and ten extreme susceptible RILs due to normalization of irrelevant differentially expressed genes between the parents.
2010-04-20 | GSE16108 | GEO
Project description:Comparison of gene expression profiles of widespread peanut cultivars for exploring the expression data in pod and leaf with regard to signatures of artificial selection We investigated the overall expression by hybridizing the microarray (GPL13178) with RNA samples from pods and leaves of five selected representative peanut varieties (Fuhuasheng, Shitouqi, Yueyou116, Shanyou523, and Yueyou7), which were widely cultivated in different periods of the past fifty years in southern China. We used the RNA sample from Yueyou7 pod as a reference for all the pod hybridizations, and used the Yueyou7 leaf sample as a reference for all the leaf hybridizations. Field grown plants under normal irrigation were used for sample collection. Replicates with dye-swap were performed for each genotype.
2012-06-18 | E-GEOD-30128 | biostudies-arrayexpress
Project description:Purpose: The goal of this study are to reveal the internal mechanism of Bacillus cereus G2 increased Glycyrrhiza uralensis Fisch. seedlings salt-tolerance by RNA-Seq. Methods: mRNA profiles of Glycyrrhiza uralensis Fisch. Seedling in four treatment: control treatment, G2 treatment, salt treatment, salt and G2 treatment. Results: We mapped about 3 million sequence reads per sample to the G. uralensis transcriptome. A total of 35,831 genes in all samples of G. uralensis were identified and quantified by transcriptions, among which 3608 DEGs were identified. There are 1589, 623, 469 and 927 DEGs in S vs CK, CK+B vs CK, S+B vs S and S+B vs CK+B comparisons, respectively. Validation of expression levels for 12 randomly selected DEG candidates was carried out by quantitative real-time PCR (qRT-PCR). The results showed high congruence between RNA-Seq and qRT-PCR results (coefficient of determination R2 =0.9088) indicating the reliability of RNA-Seq quantification of gene expression. Conclusions: Our study help to better understand the underlying molecular mechanisms of G2 improve the salt tolerance of G. uralensis.
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